Skip to another splice site:
1  
 5'  3'   
2  
 5'  3'   
3  
 5'  3'   
4  
 5'  3'   
5  
 5'  3'   
6  
 5'  3'   
7  
 5'  3'   
8  
 5'  3'   
9  
 5'  3'   
10  
 5'  3'   
11  
 5'  3'   
12  
 5'  3'   
13  
 5'  3'   
14  
 5'  3'   
15  
 5'  3'   
16  
 5'  3'   
17  
 5'  3'   
18  
 5'  3'   
19  
 5'  3'   
20  
 5'  3'   
21  
 5'  3'   
22  
 5'  3'   
23  
 5'  3'   
24  
 5'  3'   
25  
 5'  3'   
26  
 5'  3'   
27  
 5'  3'   
28  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattatagtttgcattaataatgctgtaatcttgcttattacacaaatactatctactttctctgccccactcataacattgtgccttctttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC

Basic information

species Glycine max
transcript GLYMA11G35460.1
intron # 20
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 20
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 21
gtattatagtttgcattaataatgctgtaatcttgcttattacacaaatactatctactttctctgccccactcataa-----cattgtgccttct-ttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
|| |||| | | | ||| | | ||| | || ||| | | ||| ||| ||| | | || | || ||||||||||| || |||||||| ||||| ||||| ||||| | |||||||| ||||| |||||||| || || || |||||||| ||||| ||||| | |
--------gtatgca-----actcttccaattcag--tgttattggagtatcatcattctcatgtgctatgtatttaaatgcttattttcctttatattgtagGTGAACCCTGGAAATGCTCCATTAGTTGTTGGACAGCTACTTGATGATGAGTGCCCTGAAGATTTCATTAAGGGTTTGATTCTGTCTGTCCGTTCTCTCC

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 20
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 21
gtattatagtttgcattaataatgctgtaatcttgcttattacacaaatactatctactttctctgccccactcataacattgtgccttct-ttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
|| |||| | | | | || || | | | | || | | || || | ||| | | || | || ||||||||||| || |||||||| ||||| ||||| ||||| | |||||||| ||||| |||||||| || || || |||||||| ||||| ||||| | |
--------gtatgcaactcttccaattcagtgtta-ttggagtatcatcattctc-atgtgctatgtatttaaattcttattttcctttatattgtagGTGAACCCTGGAAATGCTCCATTAGTTGTTGGACAGCTACTTGATGATGAGTGCCCTGAAGATTTCATTAAGGGTTTGATTCTGTCTGTCCGTTCTCTCC

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 19
gtattatagtttgcattaataatgctgtaatcttgc---ttattacacaaatactatctactttctctgccccactcataacattgtgccttctttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
||| | || | |||| || ||| | ||| || | ||| | | || | | | | || || ||| | | ||||| || || || |||||||| || || |||||||| ||| | |||||||||||||| |||||||| ||||| || |||||||||||||||||||| | |
---gtatgtacatccttgaagtcactgttattttgggcgtcattcttcatctggtatttcaagcatttgtttgatt-gtttccttttgtcttgtatgtagGTCAATCCTGGTAATGCTCCCTTGGTAGTTGGGCAACTTCTGGATGATGAATGCCCGGAAGATTTCATCAAGGGTTTGATTCTCTCTGTTCGTTCTCTGC

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM2G111355_T01 (Zea mays), 3'ss of exon 1
----gtattatagtt-tgcattaataatgctgtaatcttgcttattacacaa-atactatctactttctctgccccactcataacattgtgccttctttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
| ||||| || || | |||| | | | | | ||| || | | | | | || || | ||| ||| ||||||| || ||||||||||| || || || ||||| | | |||||||||||||| |||||||||||||| || ||||| |||||||||||||| | |
gttcagaaggtagttgtgtgttt-cgactctgttaattcgtgcgtcgttcctcataataggttgagtatgagaatggttaat--tcttttttcttgtttccagGTGAATCCCGGGAATGCTCCATTGGTAGTGGGGCAATTACTTGATGATGAATGCCCTGAAGATTTTATCAAGGGTTTGATCCTCTCTGTTCGTTCTCTCC

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM2G430947_T01 (Zea mays), 3'ss of exon 7
gtattatagtttgcattaataatgctgtaatcttgcttattacacaaatactatctactttctctgccccactcataacattgtgccttctttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
| | || || | | || | | || ||| | | | |||| || | | | | | | | || || | |||| ||| ||||||| || ||||||||||| || || || ||||| | | |||||||||||||| ||||||||||||| || ||||| || | ||||||||| | |
--gtagttgtgtgtttcgactctgtta-attcgtgcgccgttc-ctaataataggttgaatatgagaacgattaat--tctttttccttgtttccagGTGAATCCCGGGAATGCTCCATTGGTAGTGGGGCAATTACTTGATGATGAATGCCCTAAAGATTTTATCAAGGGTTTGATCCTATTTGTTCGTTCTCTCC

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 20
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 21
gtattatagtttgcattaataatgctgtaatcttgcttattacacaaatactatctactttctctgccccactcataacattgtgccttctttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
||| || || || ||||| | ||| || | | ||| || | ||| |||||||| || ||||||||||| ||||| || |||||| | | ||||| |||||||| ||||||||||| |||||| | ||||| ||||||||||| ||||
-------------------gtatgtagtttctttagacttttgttaaatatggtaggattttcatgaaagaattata-tatgcgatcccttttgtagGTGAATCCTGGGAATGCTCCCTTAGTTGTGGGGCAGTTGCTTGATGACGAATGCCCTGAAGATTTTATAAAAGGCCTCATTCTTTCTGTTCGTTCATTAC

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 20
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 21
gtattatagtttgcattaataatgctgtaatcttgcttattacacaaatact-atctactttctctgccccactcataacattgtgccttctttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
| || | | ||| | ||| | | | | | ||| | || | | ||| | || || | | | |||||||||| ||||||||||| ||||| || |||||| | | |||||||||||||| ||||||||||| |||||| | ||||||||||||||||| || |
------------gtataaggtttcctgggactacttttaatgcgttggagttcagtttttttttatgaaatatttata-cgtt-tgattctgtcaaagGTGAACCCTGGGAATGCTCCCTTAGTTGTCGGGCAGTTGCTTGATGATGAATGCCCTGAAGATTTTATAAAAGGCCTCATTCTCTCTGTTCGTTCATTGC

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 20
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 21
------------------------gtattatagtttgcatt--aataatgctgtaatcttgc-------ttattacacaaat-------actatctactttctctgccccactcataacattgtgccttctttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
| ||| | | | | || | ||| || | || || | | | | | ||| | | | | || | | | || | || |||| |||||||||||| | ||||| |||||||| || |||||||| ||||||||||||| ||||||||||| || ||||| | ||||| ||||| || || | |
gtgtgagttccttctagaattctagaattttggatcccctttgggtcatgatgaactcctgtggatgcttcaatgccctaattaattttagtcttcaattatttgattaaattaattgcttttgcttctcttgatagGTGAACCCTAGTAATGCACCTTTAGTTGTGGGGCAGCTGCTAGATGATGAATGTCCAGAAGATTTCATTAAAGGTCTAATTCTTTCTGTCCGGTCGCTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacaaatactatctactttctctgccccactcataacattgtgccttctttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
                              tcataac  putative branch site (score: 2)
 tgccttcttt  putative PPT
 ttctttata  TA-rich tract